YRC Public Data Repository - Protein Structure Prediction

Protein:	MSD1
Organism:	Saccharomyces cerevisiae
Length:	658 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for MSD1.

Description	E-value	Query Range	Subject Range
SYD_NITEU - Aspartate--tRNA ligase OS=Nitrosomonas europaea GN=aspS PE=3 SV=1 SYDND_NITEU - Aspartate--tRNA(Asp/Asn) ligase OS=Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298) GN=aspS PE...	0.0	[33..657]	[1..589]
SYD_NEIMA - Aspartate--tRNA ligase OS=Neisseria meningitidis serogroup A GN=aspS PE=3 SV=1 gi\|11271337 - pir\|\|F81831 aspartate-tRNA ligase (EC 6.1.1.12) NMA2019 [imported] - Neisseria meningitidis (strain ... SYDND_NEIMA - Aspartate--tRNA(Asp/Asn) ligase OS=Neisseria meningitidis serogroup A / serotype 4A (strain Z2491) G...	0.0	[33..656]	[1..595]
SYD_CHRVO - Aspartate--tRNA ligase OS=Chromobacterium violaceum GN=aspS PE=3 SV=1 SYDND_CHRVO - Aspartate--tRNA(Asp/Asn) ligase OS=Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 12...	0.0	[33..658]	[1..594]
gi\|11271345 - pir\|\|G81195 aspartyl-tRNA synthetase NMB0466 [imported] - Neisseria meningitidis (strain MC58 serogr... SYDND_NEIMB - Aspartate--tRNA(Asp/Asn) ligase OS=Neisseria meningitidis serogroup B (strain MC58) GN=aspS PE=3 SV=... SYD_NEIMB - Aspartate--tRNA ligase OS=Neisseria meningitidis serogroup B GN=aspS PE=3 SV=1	0.0	[33..656]	[1..595]
SYDND_RALSO - Aspartate--tRNA(Asp/Asn) ligase OS=Ralstonia solanacearum (strain GMI1000) GN=aspS PE=3 SV=1 SYD_RALSO - Aspartyl-tRNA synthetase OS=Ralstonia solanacearum GN=aspS PE=3 SV=1	0.0	[33..654]	[1..591]
SYD_BORPA - Aspartate--tRNA ligase OS=Bordetella parapertussis GN=aspS PE=3 SV=1 SYD_BORPE - Aspartate--tRNA ligase OS=Bordetella pertussis GN=aspS PE=3 SV=1 SYD_BORBR - Aspartyl-tRNA synthetase OS=Bordetella bronchiseptica GN=aspS PE=3 SV=1 SYDND_BORPA - Aspartate--tRNA(Asp/Asn) ligase OS=Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 1325... SYDND_BORBR - Aspartate--tRNA(Asp/Asn) ligase OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB5... SYDND_BORPE - Aspartate--tRNA(Asp/Asn) ligase OS=Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251...	0.0	[33..657]	[1..594]
SYD_PSESM - Aspartyl-tRNA synthetase OS=Pseudomonas syringae pv. tomato GN=aspS PE=3 SV=1 SYDND_PSESM - Aspartate--tRNA(Asp/Asn) ligase OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=aspS PE=3 SV=1	0.0	[33..658]	[2..589]
gi\|191172971, gi... - gi\|191172971\|ref\|ZP_03034505.1\| aspartyl-tRNA synthetase [Escherichia coli F11], gi\|190906682\|gb\|EDV... SYD_ECO45 - Aspartate--tRNA ligase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=aspS PE=3 SV=1 SYD_ECOL6 - Aspartate--tRNA ligase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=aspS PE=3 S... SYD_ECOK1 - Aspartate--tRNA ligase OS=Escherichia coli O1:K1 / APEC GN=aspS PE=3 SV=1 SYD_ECOL5 - Aspartate--tRNA ligase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=aspS PE=3 SV=1 gi\|227885706, gi... - gi\|227885706\|ref\|ZP_04003511.1\| aspartyl-tRNA synthetase [Escherichia coli 83972], gi\|227837279\|gb\|E... SYD_ECOUT - Aspartate--tRNA ligase OS=Escherichia coli (strain UTI89 / UPEC) GN=aspS PE=3 SV=1 SYD_ECO81 - Aspartate--tRNA ligase OS=Escherichia coli O81 (strain ED1a) GN=aspS PE=3 SV=1 SYD_ECOL6 - Aspartate--tRNA ligase OS=Escherichia coli O6 GN=aspS PE=3 SV=1 gi\|237705820, gi... - gi\|237705820\|ref\|ZP_04536301.1\| aspartyl-tRNA synthetase [Escherichia sp. 3_2_53FAA], gi\|226900577\|g...	0.0	[33..658]	[1..588]
gi\|13362044, gi\|... - gi\|15831830\|ref\|NP_310603.1\| aspartyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|1336... gi\|25293010, gi\|... - pir\|\|H90950 aspartate tRNA synthetase [imported] - Escherichia coli (strain O157:H7, substrain RIMD... gi\|217318181, gi... - gi\|217328834\|ref\|ZP_03444915.1\| aspartyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14588], gi... SYD_ECO57 - Aspartate--tRNA ligase OS=Escherichia coli O157:H7 GN=aspS PE=3 SV=1 gi\|189367330, gi... - gi\|189367330\|gb\|EDU85746.1\| aspartyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4501], gi\|1687...	0.0	[33..658]	[1..588]
SO2433 - aspartyl-tRNA synthetase SYD_SHEON - Aspartate--tRNA ligase OS=Shewanella oneidensis (strain MR-1) GN=aspS PE=3 SV=1	0.0	[33..658]	[1..588]

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Predicted Domain #1

Region A:
Residues: [1-139]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLARSRVCLQ TITRRLADFP EANAIKKKFL FRKDTSTIKQ LKGLSSGQKI VLNGWIEQKP  60
   61 KRVGKNLIFG LLRDSNGDII QLVDNKSLLK GFTLEDVVQA VGILSLKRKL SNEDADEYEV 120
  121 QLEDITVLNA SNKKPAQMQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1742.218487
Match:	1eqrA_
Description:	Aspartyl-tRNA synthetase (AspRS); Prokaryotic AspRS, insert domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [140-658]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DFKLSAIYPP EFRYLQLRNP KYQDFLKKRS SISKEIRNSF NNFDFTEVET PMLFKATPEG  60
   61 AREFLVPTRT KRSDGKPSFY ALDQSPQQYK QLLMASGVNK YYQMARCFRD EDLRADRQPE 120
  121 FTQVDMEMAF ANSEDVMKII EKTVSGVWSK FSKKRGLLTL DSKGTLVPAK KENGTVSIFR 180
  181 MTYEQAMTSY GIDKPDLRAP DLKIINLGEF NAFSHLNKKF PVFEVIILRS AFSNMEEYKE 240
  241 RWSFLTNNSN YNYRVPIVLP IENDEQANSN WFENFHAIAT FENPHLITKF LKLKKGDIVC 300
  301 GCTREPNHSI FENPTPLGRL RQLVLQSEHG KNIYHAVNKD VASWIVDFPL FSPVIIEDKS 360
  361 GKKEKLAYPE YEKDRLCSTH HPFTMVKLKD YEKLEKTPEK CLGRHYDLVV NGVELGGGST 420
  421 RIHDPRLQDY IFEDILKIDN AYELFGHLLN AFDMGTPPHA GFAIGFDRMC AMICETESIR 480
  481 DVIAFPKSIT GADLVVKSPS VIPESILEPY NIKYSNSKK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1742.218487
Match:	1eqrA_
Description:	Aspartyl-tRNA synthetase (AspRS); Prokaryotic AspRS, insert domain
Matching Structure (courtesy of the PDB):

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits